Deep learning for assembly of haplotypes and viral quasispecies from short and long sequencing reads-Reference-Cited by-同舟云学术

Deep learning for assembly of haplotypes and viral quasispecies from short and long sequencing reads

Published:2022-08-07 Issue: Volume: Page:
ISSN:
Container-title:Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics
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Author:

Ke Ziqi¹,Vikalo Haris¹

Affiliation:

1. The University of Texas at Austin

Funder

NSF (National Science Foundation)

Publisher

ACM

Link

https://dl.acm.org/doi/pdf/10.1145/3535508.3545524

Reference45 articles.

1. HapCompass: A Fast Cycle Basis Algorithm for Accurate Haplotype Assembly of Sequence Data

2. Soyeon Ahn , Ziqi Ke , and Haris Vikalo . 2018. Viral quasispecies reconstruction via tensor factorization with successive read removal. Bioinformatics (Oxford , England) 34, 13 ( 2018 ), i23--i31. Soyeon Ahn, Ziqi Ke, and Haris Vikalo. 2018. Viral quasispecies reconstruction via tensor factorization with successive read removal. Bioinformatics (Oxford, England) 34, 13 (2018), i23--i31.

3. aBayesQR: A Bayesian Method for Reconstruction of Viral Populations Characterized by Low Diversity

4. Sanchis-Juan Alba , J. Stephens , and C. E. et al. French . 2018 . Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing. Genome Med 10, 95 (2018). Sanchis-Juan Alba, J. Stephens, and C.E. et al. French. 2018. Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing. Genome Med 10, 95 (2018).

5. I. Astrovskaya B. Tork S. Mangul K. Westbrooks I. Mandoiu P. Balfe and A. Zelikovsky. 2011. Inferring viral quasispecies spectra from 454 pyrosequencing reads. BMC bioinformatics 12 6 (2011) 1. I. Astrovskaya B. Tork S. Mangul K. Westbrooks I. Mandoiu P. Balfe and A. Zelikovsky. 2011. Inferring viral quasispecies spectra from 454 pyrosequencing reads. BMC bioinformatics 12 6 (2011) 1.